Aims at detecting single nucleotide variation (SNV) and insertion/deletion (INDEL) in circulating tumor DNA (ctDNA), used as a surrogate marker for tumor, at each base position of an Next Generation Sequencing (NGS) analysis. Mutations are assessed by comparing the minor-allele frequency at each position to the measured PER in control samples.
| Version: | 1.5.2 |
| Depends: | R (≥ 3.3.1), ggplot2 (≥ 2.0.0), grid (≥ 3.2.3), GenomicRanges (≥ 1.22.3), VariantAnnotation (≥ 1.16.4) |
| Imports: | S4Vectors (≥ 0.8.7), Rsamtools (≥ 1.22.0), rtracklayer (≥ 1.30.1), robustbase (≥ 0.92-5), SummarizedExperiment (≥ 1.2.3) |
| Published: | 2016-09-09 |
| Author: | Yves Rozenholc, Nicolas Pécuchet, Pierre Laurent-Puig |
| Maintainer: | Yves Rozenholc <yves.rozenholc at parisdescartes.fr> |
| License: | MIT + file LICENSE |
| NeedsCompilation: | no |
| CRAN checks: | PlasmaMutationDetector results |
| Reference manual: | PlasmaMutationDetector.pdf |
| Package source: | PlasmaMutationDetector_1.5.2.tar.gz |
| Windows binaries: | r-devel: PlasmaMutationDetector_1.5.2.zip, r-release: PlasmaMutationDetector_1.5.2.zip, r-oldrel: not available |
| OS X Mavericks binaries: | r-release: not available, r-oldrel: not available |
Please use the canonical form https://CRAN.R-project.org/package=PlasmaMutationDetector to link to this page.